ModCon

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see ModCon.

Modifying splice site usage by changing the mRNP code, while maintaining the genetic code

Bioconductor version: 3.21

Collection of functions to calculate a nucleotide sequence surrounding for splice donors sites to either activate or repress donor usage. The proposed alternative nucleotide sequence encodes the same amino acid and could be applied e.g. in reporter systems to silence or activate cryptic splice donor sites.

Author: Johannes Ptok [aut, cre] ORCID iD ORCID: 0000-0002-0322-5649

Maintainer: Johannes Ptok <Johannes.Ptok at posteo.de>

Citation (from within R, enter citation("ModCon")):

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("ModCon")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ModCon")

Designing SD context with ModCon HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews AlternativeSplicing, FunctionalGenomics, Software

Version 1.16.0

In Bioconductor since BioC 3.13 (R-4.1) (4.5 years)

License GPL-3 + file LICENSE

Depends data.table, parallel, utils, stats, R (>= 4.1)

Imports

System Requirements Perl

URL https://github.com/caggtaagtat/ModCon

Suggests testthat, knitr, rmarkdown, dplyr, shinycssloaders, shiny, shinyFiles, shinydashboard, shinyjs

Linking To

Enhances

Depends On Me

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Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ModCon_1.16.0.tar.gz

Windows Binary (x86_64) ModCon_1.16.0.zip

macOS Binary (x86_64) ModCon_1.16.0.tgz

macOS Binary (arm64) ModCon_1.16.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/ModCon

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ModCon

Bioc Package Browser https://code.bioconductor.org/browse/ModCon/

Package Short Url https://bioconductor.org/packages/ModCon/

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